Analysis of interatomic Contacts of Structural Units in PDB entry:
3KYD


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 3KYD entry

There are 3 chains in PDB entry 3KYD (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 LEU 25PRO 345
B
 SER 4GLY 548
D
 GLU 20GLY 96
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 35 helices in PDB entry 3KYD. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
1
A
26 35Right-handed alpha
Helix 2
2
A
45 59Right-handed alpha
Helix 3
3
A
92 94Right-handed 310
Helix 4
4
A
95 102Right-handed alpha
Helix 5
5
A
114 118Right-handed 310
Helix 6
6
A
119 124Right-handed alpha
Helix 7
7
A
135 149Right-handed alpha
Helix 8
8
A
215 221Right-handed alpha
Helix 9
9
A
226 234Right-handed alpha
Helix 10
10
A
238 254Right-handed alpha
Helix 11
11
A
258 260Right-handed 310
Helix 12
12
A
261 278Right-handed alpha
Helix 13
13
A
279 281Right-handed 310
Helix 14
14
A
288 295Right-handed 310
Helix 15
15
A
299 320Right-handed alpha
Helix 16
16
B
8 18Right-handed alpha
Helix 17
17
B
26 40Right-handed alpha
Helix 18
18
B
64 68Right-handed 310
Helix 19
19
B
71 82Right-handed alpha
Helix 20
20
B
102 107Right-handed alpha
Helix 21
21
B
118 133Right-handed alpha
Helix 22
22
B
182 194Right-handed alpha
Helix 23
23
B
243 248Right-handed alpha
Helix 24
24
B
254 259Right-handed alpha
Helix 25
25
B
260 267Right-handed alpha
Helix 26
26
B
283 290Right-handed alpha
Helix 27
27
B
314 335Right-handed alpha
Helix 28
28
B
348 366Right-handed alpha
Helix 29
29
B
372 382Right-handed alpha
Helix 30
30
B
387 407Right-handed alpha
Helix 31
31
B
409 413Right-handed 310
Helix 32
32
B
460 468Right-handed alpha
Helix 33
33
B
498 502Right-handed 310
Helix 34
34
B
505 510Right-handed 310
Helix 35
35
D
44 56Right-handed alpha
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There are 5 sheets in PDB entry 3KYD. Click on sheet of interest to get list of strands forming it: A, B, C, D, E,

There are 16 strands in A sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
107 111first strand
Strand 2
A
62 66parallel
Strand 3
A
38 42parallel
Strand 4
A
128 131parallel
Strand 5
A
152 159parallel
Strand 6
A
162 168anti-parallel
Strand 7
A
328 332anti-parallel
Strand 8
A
337 341anti-parallel
Strand 9
B
427 432anti-parallel
Strand 10
B
415 418anti-parallel
Strand 11
B
145 151anti-parallel
Strand 12
B
136 142anti-parallel
Strand 13
B
111 114parallel
Strand 14
B
20 23parallel
Strand 15
B
43 47parallel
Strand 16
B
88 92parallel
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There are 2 strands in B sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
171 178first strand
Strand 2
A
205 212anti-parallel
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There are 6 strands in C sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
181 182first strand
Strand 2
D
33 39parallel
Strand 3
D
21 27anti-parallel
Strand 4
D
87 92parallel
Strand 5
D
62 66anti-parallel
Strand 6
D
69 70anti-parallel
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There are 2 strands in D sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
170 171first strand
Strand 2
B
383 384parallel
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There are 6 strands in E sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
B
489 491first strand
Strand 2
B
478 482anti-parallel
Strand 3
B
516 521anti-parallel
Strand 4
B
526 534anti-parallel
Strand 5
B
449 454parallel
Strand 6
B
544 546anti-parallel
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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il